Basic Information
VIS ID
TVIS10013785
Fusion event
HBV-LINC01950 integration
Validated
No
Detection method
NGS
Data source
Curated
Sample type
Tumor
Disease
Hepatocellular carcinoma (HCC)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30271481
Virus Sequence
Virus name
HBV
Reference genome
NC_003977
Region type
precore/core protein|
Start
1859
Orient
+
Integrated sequence
TTAAAGGTCTTTGTACTAGGAGGCTGTAGGCATAAATTGGTCTGCGCACCAGCACCATGCAACTTTTTCACCTCTGCCTAATCATCTCTTGTTCATGTCC| |TACTGTTCAAGCCTCCAAGCTGTGCCTTGGGTGGCTTTGGGGCATGGACATCGACCCTTATAAAGAATTTGGAGCTACTGTGGAGTTACTCTCGTTTTTG
Host Sequence
Chromosome
chr5
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
106237209/106901508 (Hg38)
End
106237209/106901508 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA5F
Target gene
LINC01950
Nearest miRNA
hsa-mir-10397/Upstream/6084943; hsa-mir-103a-1/Downstream/3612321;
Nearest TSS
ENST00000502646/Upstream/1508538; ENST00000513676/Downstream/79361;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/3641659, chr5-CpG: 253/Downstream/767921
Nearby gene
RAB9BP1(-1801410) ; EFNA5(+475381) ;
Upstream sequence
CCGGGCGGACCCGGGGGTCTGGGCCGCGCTTCCCCGCCCGCGCGCCGCTCGCGCTCCCAGGGTGCAGGGACGCCAGCGAGGGCCCCAGCGGAGAGAGGTC
Downstream sequence
gtgagttagggaggattccctctttttctattgattggaatagtttcagaaggaatggtaccagttcctccttgtacctctggtagaattcggctgtgaa
Reference
Yang, L., et al. Molecular Characterization of HBV DNA Integration in Patients with Hepatitis and Hepatocellular Carcinoma. J Cancer ,2018,9(18): 3225-3235.
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